The perl command is not executing? I am trying to run the .pl in my cygwin home directory (C:\cygwin\home\cmccabe) using ${id}.txt.hg19_multianno.txt (located in the annovar directory) as the input file to be formatted and $FILENAME is the output file to be saved. The .pl is attached as well. Thank you .
Code:
matrix() {
printf "\n\n"
cd 'C:\Users\cmccabe\Desktop\annovar'
my $FILENAME = 'L:\NGS\3_BUSINESS\Matrix\Torrent\matrix_${id}.txt';
$( perl -ne 'chomp; system ("perl ~/matrix.pl < ./${id}.txt.hg19_multianno.txt")' > )$FILENAME) )
printf "Process complete and new file saved in ($FILENAME), Are there additional target gene patients? Y/N "; read match_choice
case "$match_choice" in
[yY]) id=""; menu ;;
[nN]) id=""; printf "\n Goodbye! /n/n " ;;
esac
}
Hello,
I am trying to write a bash script function to present the user a menu of options. The following is what I have so far:
function MainMenu {
while ]
do
echo "--------------------------------------------------------------------------------"
echo... (4 Replies)
I have a main menu
quit=n
while
do
clear
echo
echo "1. General system information"
echo "2. Hardware utilisation information"
echo "3. File management"
echo "4. User information"
echo "5. Information on network connectivity"
echo "6. Information on processes"
echo "Q.Quit" ... (3 Replies)
Greetings all,
I'm having some trouble writing a menu drive bash script, actually coding the menu part was not difficult however its a problem with a menu option I'm having trouble with.
My menu has 5 options, when the user selects the second option, they are then prompted to enter a number from... (5 Replies)
Hi again :)
This is just a sample whiptail menu.
Works great, but have been trying to get the chosen value into a variable but failing pretty bad...its ther but unsure how to echo it out when needed
#! /bin/bash
#This is the menu
whiptail --title "Menu example" --menu "Choose an... (9 Replies)
Dear Sir,
May I know how do I go about adding the following feature into the script below:
When user enter values other than 1,2,3,4,
a) Message “Wrong entry !!! Pls select 1,2,3 or 4” is displayed
b) The screen is cleared again and the menu is displayed.
#!/bin/bash
clear
var=1... (2 Replies)
Hi,
In the archives I found this:
And this works fine.
$if mode=vi
"\C-0-": digit-argument
TAB: menu-complete
"\e
But what I want is to reverse this. So I want that tab does reverse menu completion and shift tab does normal menu completion.
Can anyone help me with this? Thanks (0 Replies)
Hello,
Been trying to build a menu with whiptail lately. However, my code doesn't seems to be working even though when i compared to other similar code they looks the same.
#!/bin/bash
clear
whiptail --msgbox "Entering networking sub-menu" 20 78
whiptail --title Networking --menu... (8 Replies)
Ever since I added these two code blocks to my bash menu it just opens and closes right away. I use a batch file that worked fine until these codes were added and I am not sure what is wrong.
Basically, what I am trying to do in the additional section is if the answer is "Y" then it goes back... (13 Replies)
We have a simple menu with prompt of menu numbers to user.
It is still under construction.
Is there a way to "count" the menu choices so the prompt maximum count can be changed dynamically?
See attached TODO note in code
read_options(){
local choice
# the... (7 Replies)
Hi, I'm new to bash, and have an example menu script using Zenity. It works fine if the user enters A B or C, but if the user enters nothing, I can only figure out how to exit the script. How do I get the menu to reappear if no input is selected?
The script is:
title="Select example"... (2 Replies)
Discussion started by: allen11
2 Replies
LEARN ABOUT DEBIAN
rdup-up
RDUP-UP(1) rdup RDUP-UP(1)NAME
rdup-up - update a directory tree with a rdup archive
SYNOPSIS
rdup-up [OPTION]... DIRECTORY
DESCRIPTION
With rdup-up you can update an (possibly) existing directory structure with a rdup archive.
The rdup archive has to be given to rdup-up's standard input.
Username and uids
rdup outputs both the username and uid, the receiving system (which may be a totally different system) checks if the username and uid
match. If the username and uid don't match the (numeric) uid is used on the file. The same holds true for the groupname and gid.
OPTIONS -n Do a dry-run and do not create anything on disk.
-t Create DIRECTORY (ala mkdir -p) if it does not exist.
-s N Strip N path components from a pathname. If the resulting pathname is empty after this operation it is skipped. Be careful however
with the following structure:
/foo
/foo/bar
/foo/bar/bla.txt
/foo/blork/bla.txt
With rdup-up -s2 this will leave:
<empty>
<empty>
/bla.txt
/bla.txt
And the last 'bla.txt' will overwrite the previous one, this will happen without warnings.
-r PATH
This option is related to the -s option, but works different. The string PATH is removed from (the beginning of) each pathname. With
-r /home/backup the pathname /home/backup/bin/mycmd becomes /bin/mycmd. The same could be done with -s 2, but then you need to count
the slashes. Note -s is always performed before -r.
-v Be more verbose and echo the processed files to standard output.
-vv Be even more verbose and echo processed file and the uid and gid information to standard output.
-T Show a table of contents of the rdup stream received (ala tar -tf -). With -T the directory argument is optional. -T unsets any
verbose (-v) options.
-h A short help message.
-V Show the version.
EXIT CODE
rdup-up return a zero exit code on success, otherwise 1 is returned.
AUTHOR
Written by Miek Gieben.
REPORTING BUGS
Report bugs to <miek@miek.nl>.
SEE ALSO
http:/www.miek.nl/projects/rdup/ is the main site of rdup. Also see rdup(1), rdup-tr(1) and rdup-backups(7).
COPYRIGHT
Copyright (C) 2005-2010 Miek Gieben. This is free software. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR
PURPOSE.
Licensed under the GPL version 3. See the file LICENSE in the source distribution of rdup.
1.1.11 13 Dec 2008 RDUP-UP(1)
03-27-2015
.